https://github.com/llvm/llvm-project/issues/70703 pointed out that cloning LLVM modules could lead to miscompiles when using FatLTO. This is due to an existing issue when cloning modules with labels (see #55991 and #47769). Since this can lead to miscompilation, we can avoid cloning the LLVM modules, which was desirable anyway. This patch modifies the EmbedBitcodePass to no longer clone the module or run an input pipeline over it. Further, it make FatLTO always perform UnifiedLTO, so we can still defer the Thin/Full LTO decision to link-time. Lastly, it removes dead/obsolete code related to now defunct options that do not work with the EmbedBitcodePass implementation any longer.
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